1
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Wei J, Ge K, Gong Y, Li L, Tang Q, Liao X, Zhang G, Gao F. DNAzyme-driven bipedal DNA walker for label-free and signal-on electrochemical detection of amyloid-β oligomer. Int J Biol Macromol 2023; 228:234-241. [PMID: 36566812 DOI: 10.1016/j.ijbiomac.2022.12.216] [Citation(s) in RCA: 6] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/10/2022] [Revised: 12/08/2022] [Accepted: 12/19/2022] [Indexed: 12/24/2022]
Abstract
As a common technique for detecting AβO, the enzyme-linked immunosorbent assay (ELISA) method is time-consuming, high in cost, and poor in stability. Therefore, it is necessary to develop a highly sensitive, method-simple and low-cost method for the selective detection of AβO. Here, we created a novel signal-on and label-free electrochemical aptamer sensor for the detection of AβO based on a DNAzyme-driven DNA bipedal walking strategy. Compared with common DNA walkers, bipedal DNA walkers exhibit larger walking areas and faster walking kinetics, and provide higher amplification efficiency. The DNAwalker is powered by an Mg2+-dependent DNAzyme, and the binding-induced DNAwalker continuously clamps the MB, unlocking several active G-quadruplex-forming sequences. These G-quadruplexes can be further combined by hemin to generate a G-quadruplex/heme complex, resulting in an amperometric signal, resulting in a broad proportional band from 0.1 pM to 1 nM and an excellent detection range of 46 fM. A bipedal DNA walker aptamer sensor can detect human serum AβO with remarkable specificity, high reproducibility and practical application value.
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Affiliation(s)
- Jihua Wei
- Guangxi Key Laboratory of Basic and Translational Research of Bone and Joint Degenerative Disease, The Affiliated Hospital of Youjiang Medical University for Nationalities, 533000 Baise, China
| | - Kezhen Ge
- School of Pharmacy, Xuzhou Medical University, 221004 Xuzhou, China
| | - Yuanxun Gong
- Guangxi Key Laboratory of Basic and Translational Research of Bone and Joint Degenerative Disease, The Affiliated Hospital of Youjiang Medical University for Nationalities, 533000 Baise, China
| | - Liqing Li
- Guangxi Key Laboratory of Basic and Translational Research of Bone and Joint Degenerative Disease, The Affiliated Hospital of Youjiang Medical University for Nationalities, 533000 Baise, China
| | - Qianli Tang
- Guangxi Key Laboratory of Basic and Translational Research of Bone and Joint Degenerative Disease, The Affiliated Hospital of Youjiang Medical University for Nationalities, 533000 Baise, China
| | - Xianjiu Liao
- West Guangxi Key Laboratory for Prevention and Treatment of High-incidence Diseases, Youjiang Medical University for Nationalities, Baise, Guangxi 533000, China.
| | - Guanqun Zhang
- School of Pharmacy, Xuzhou Medical University, 221004 Xuzhou, China; Department of Neurology, Xuzhou Central Hospital, 221004 Xuzhou, China.
| | - Fenglei Gao
- School of Pharmacy, Xuzhou Medical University, 221004 Xuzhou, China.
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2
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Liao X, Zhang C, Shi Z, Shi H, Qian Y, Gao F. Signal-on and label-free electrochemical detection of amyloid β oligomers based on dual amplification induced hemin/G-quadruplex formation. J Electroanal Chem (Lausanne) 2020. [DOI: 10.1016/j.jelechem.2020.114604] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/12/2022]
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3
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Zhang C, Zhang H, Wu P, Zhang X, Liu J. Suppressing the background activity of hemin for boosting the sensitivity of DNAzyme-based biosensors by SYBR Green I. Biosens Bioelectron 2020; 169:112603. [PMID: 32947082 DOI: 10.1016/j.bios.2020.112603] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/02/2020] [Revised: 09/04/2020] [Accepted: 09/06/2020] [Indexed: 02/08/2023]
Abstract
Peroxidase-like DNAzymes have been extensively used to replace horseradish peroxidase (HRP) for developing biosensors for signal amplification. However, the background activity from the cofactor (i.e., free hemin) has limited the sensitivity of such sensors. Herein, we aim to find an inhibitor for hemin to suppress the background signal, and a classic split DNAzyme-based sensor was used to detect a complementary DNA oligonucleotide. After screening a series of dyes, SYBR Green I (SG, one of the DNA stanning dyes) was selected for suppressing the background. Simply by adding 0.84 μM SG, the background from 50 nM hemin was suppressed over 30-fold. The suppression was caused by the interaction between SG and hemin. In the presence of the target DNA, the formed duplex region and G-quadruplex structure can better bind SG and hemin respectively, thus preventing the interaction between them and showing a high activity of the DNAzyme. The optimized sensor showed a detection limit of 3.8 pM for the target DNA (p53 gene). In addition, the backgrounds from chemiluminescence, colorimetric and fluorescence sensing modes can all be reduced by adding SG to the split DNAzyme system. The suppression of the background of peroxidase DNAzymes is a critical step towards practical use of related biosensors.
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Affiliation(s)
- Chi Zhang
- College of Materials and Chemistry & Chemical Engineering, Chengdu University of Technology, Chengdu, 610059, China
| | - Houchun Zhang
- College of Materials and Chemistry & Chemical Engineering, Chengdu University of Technology, Chengdu, 610059, China
| | - Peng Wu
- Key Laboratory of Green Chemistry and Technology, Analytical & Testing Center, Sichuan University, 29 Wangjiang Road, Chengdu, 610064, China
| | - Xinfeng Zhang
- College of Materials and Chemistry & Chemical Engineering, Chengdu University of Technology, Chengdu, 610059, China; Department of Chemistry, Waterloo Institute for Nanotechnology, University of Waterloo, Ontario N2L 3G1, Canada.
| | - Juewen Liu
- Department of Chemistry, Waterloo Institute for Nanotechnology, University of Waterloo, Ontario N2L 3G1, Canada.
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4
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Wang P, Wu Q, Wang C, Yang X, Wei M, Pu Y, Zhou M, Zhang M. Prussian blue functionalized partial reduced graphene oxide enhanced electrochemiluminescence of perylenetetracarboxylic acid for folic acid determination. J Electroanal Chem (Lausanne) 2019. [DOI: 10.1016/j.jelechem.2019.113324] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/13/2023]
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5
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Proximity ligation assay induced hairpin to DNAzyme structure switching for entropy-driven amplified detection of thrombin. Anal Chim Acta 2019; 1064:104-111. [DOI: 10.1016/j.aca.2019.03.007] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/26/2018] [Revised: 03/02/2019] [Accepted: 03/04/2019] [Indexed: 12/31/2022]
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6
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Target-programmed and autonomous proximity binding aptasensor for amplified electronic detection of thrombin. Biosens Bioelectron 2018; 117:743-747. [PMID: 30014949 DOI: 10.1016/j.bios.2018.06.069] [Citation(s) in RCA: 32] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/02/2018] [Revised: 06/13/2018] [Accepted: 06/29/2018] [Indexed: 11/22/2022]
Abstract
The development of sensitive and simple approaches capable of monitoring trace amounts of protein biomarkers is appealing for disease diagnosis and treatment. Towards this end, we have developed an electrochemical sensing platform for sensitive and simple detection of protein biomarkers by using thrombin as the model target molecules via a target-programmed proximity binding amplification approach. The binding of thrombin to the aptamer sequences in the partial dsDNA duplex probes induces the release of the ssDNA trigger strands, which catalyze subsequent assembly formation of many methylene blue (MB)-tagged proximate DNA motifs with the presence of the DNA fuel strands through cascaded toehold-mediated strand displacement reactions. Due to the proximity-binding effect, these MB-tagged proximate DNA motifs anneal with the capture probes on the sensor surface with significantly enhanced stability against the corresponding single component counterpart, thereby pulling the MB tags close to the sensor surface and generating substantially amplified signal responses for sensitive determination of thrombin down to 23.6 pM. In addition, such aptasensor can specifically discriminate thrombin from other interference proteins, and can also be utilized to monitor thrombin in diluted serum samples, demonstrating its great potential for sensitive determination of proteins for early disease diagnosis.
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7
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Liu Z, Yao C, Yang C, Wang Y, Wan S, Huang J. Development of DNAzyme-based PCR signal cascade amplification for visual detection of Listeria monocytogenes in food. Anal Biochem 2018; 553:7-11. [PMID: 29777679 DOI: 10.1016/j.ab.2018.05.015] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/22/2018] [Revised: 05/15/2018] [Accepted: 05/15/2018] [Indexed: 01/04/2023]
Abstract
Listeria monocytogenes is an important foodborne pathogen, and it can cause severe diseases. Rapid detection of L. monocytogenes is crucial to control this pathogen. A simple and robust strategy based on the cascade of PCR and G-quadruplex DNAzyme catalyzed reaction was used to detect L. monocytogenes. In the presence of hemin and the aptamer formed during PCR, the catalytic horseradish peroxidase-mimicking G-quadruplex DNAzymes allow the colorimetric responses of target DNA from L. monocytogenes. This assay can detect genomic DNA of L. monocytogenes specifically with as low as 50 pg/reaction with the naked eye. Through 20 pork samples assay, visual detection assay had the same results as conventional detection methods, and had a good performance. This is a powerful demonstration of the ability of G-quadruplex DNAzyme to be used for PCR-based assay with significant advantages of high sensitivity, low cost and simple manipulation over existing approaches and offers the opportunity for application in pathogen detection.
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Affiliation(s)
- Zhanmin Liu
- School of Life Sciences, Shanghai University, Shanghai, 200444, PR China.
| | - Chenhui Yao
- School of Life Sciences, Shanghai University, Shanghai, 200444, PR China
| | - Cuiyun Yang
- Shanghai Entry-Exit Inspection and Quarantine Bureau, Shanghai 200135, PR China
| | - Yanming Wang
- School of Life Sciences, Shanghai University, Shanghai, 200444, PR China
| | - Sibao Wan
- School of Life Sciences, Shanghai University, Shanghai, 200444, PR China
| | - Junyi Huang
- School of Life Sciences, Shanghai University, Shanghai, 200444, PR China
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Zhu J, Gan H, Wu J, Ju H. Molecular Machine Powered Surface Programmatic Chain Reaction for Highly Sensitive Electrochemical Detection of Protein. Anal Chem 2018; 90:5503-5508. [PMID: 29616804 DOI: 10.1021/acs.analchem.8b01217] [Citation(s) in RCA: 67] [Impact Index Per Article: 11.2] [Reference Citation Analysis] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/17/2022]
Abstract
A bipedal molecular machine powered surface programmatic chain reaction was designed for electrochemical signal amplification and highly sensitive electrochemical detection of protein. The bipedal molecular machine was built through aptamer-target specific recognition for the binding of one target protein with two DNA probes, which hybridized with surface-tethered hairpin DNA 1 (H1) via proximity effect to expose the prelocked toehold domain of H1 for the hybridization of ferrocene-labeled hairpin DNA 2 (H2-Fc). The toehold-mediated strand displacement reaction brought the electrochemical signal molecule Fc close to the electrode and meanwhile released the bipedal molecular machine to traverse the sensing surface by the surface programmatic chain reaction. Eventually, a large number of duplex structures of H1-H2 with ferrocene groups facing to the electrode were formed on the sensor surface to generate an amplified electrochemical signal. Using thrombin as a model target, this method showed a linear detection range from 2 pM to 20 nM with a detection limit of 0.76 pM. The proposed detection strategy was enzyme-free and allowed highly sensitive and selective detection of a variety of protein targets by using corresponding DNA-based affinity probes, showing potential application in bioanalysis.
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Affiliation(s)
- Jing Zhu
- State Key Laboratory of Analytical Chemistry for Life Science, School of Chemistry and Chemical Engineering , Nanjing University , Nanjing 210023 , People's Republic of China
| | - Haiying Gan
- State Key Laboratory of Analytical Chemistry for Life Science, School of Chemistry and Chemical Engineering , Nanjing University , Nanjing 210023 , People's Republic of China
| | - Jie Wu
- State Key Laboratory of Analytical Chemistry for Life Science, School of Chemistry and Chemical Engineering , Nanjing University , Nanjing 210023 , People's Republic of China
| | - Huangxian Ju
- State Key Laboratory of Analytical Chemistry for Life Science, School of Chemistry and Chemical Engineering , Nanjing University , Nanjing 210023 , People's Republic of China
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9
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Visual diagnostic of Helicobacter pylori based on a cascade amplification of PCR and G-quadruplex DNAzyme as a color label. J Microbiol Methods 2018; 146:46-50. [PMID: 29382601 DOI: 10.1016/j.mimet.2018.01.014] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/25/2017] [Revised: 01/24/2018] [Accepted: 01/25/2018] [Indexed: 12/30/2022]
Abstract
Helicobacter pylori is a spiral-shaped, Gram-negative, microaerophilic and fastidious bacterium. It is the main cause of chronic gastritis as well as gastric and duodenal ulcers. The diagnosis of H. pylori infection is significant for the selection of therapy and for the follow up of eradication success. A simple and robust strategy based on the cascade of PCR and DNAzyme catalyzed reaction was utilized to detect H. pylori. The design of the primer pair would enable PCR to synthesize aptamer of DNAzyme at the 3' end of PCR products. G-quadruplex DNAzyme as a color label can exhibit peroxidase-like activity to amplify the specific signal and demonstrate a colorimetric signal to indicate the diagnostic result. This assay can detect genomic DNA of H. pylori specifically with as low as 100 pg/reaction by the naked eye. This is a powerful demonstration of G-quadruplex DNAzyme to be used for PCR-based assay with significant advantages of high sensitivity, low cost and simple manipulation over existing approaches and offers the potential opportunity for clinical application.
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10
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Electrochemical and AFM Characterization of G-Quadruplex Electrochemical Biosensors and Applications. J Nucleic Acids 2018; 2018:5307106. [PMID: 29666699 PMCID: PMC5831849 DOI: 10.1155/2018/5307106] [Citation(s) in RCA: 19] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/17/2017] [Revised: 10/25/2017] [Accepted: 11/05/2017] [Indexed: 02/06/2023] Open
Abstract
Guanine-rich DNA sequences are able to form G-quadruplexes, being involved in important biological processes and representing smart self-assembling nanomaterials that are increasingly used in DNA nanotechnology and biosensor technology. G-quadruplex electrochemical biosensors have received particular attention, since the electrochemical response is particularly sensitive to the DNA structural changes from single-stranded, double-stranded, or hairpin into a G-quadruplex configuration. Furthermore, the development of an increased number of G-quadruplex aptamers that combine the G-quadruplex stiffness and self-assembling versatility with the aptamer high specificity of binding to a variety of molecular targets allowed the construction of biosensors with increased selectivity and sensitivity. This review discusses the recent advances on the electrochemical characterization, design, and applications of G-quadruplex electrochemical biosensors in the evaluation of metal ions, G-quadruplex ligands, and other small organic molecules, proteins, and cells. The electrochemical and atomic force microscopy characterization of G-quadruplexes is presented. The incubation time and cations concentration dependence in controlling the G-quadruplex folding, stability, and nanostructures formation at carbon electrodes are discussed. Different G-quadruplex electrochemical biosensors design strategies, based on the DNA folding into a G-quadruplex, the use of G-quadruplex aptamers, or the use of hemin/G-quadruplex DNAzymes, are revisited.
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11
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Gao F, Fan T, Wu J, Liu S, Du Y, Yao Y, Zhou F, Zhang Y, Liao X, Geng D. Proximity hybridization triggered hemin/G-quadruplex formation for construction a label-free and signal-on electrochemical DNA sensor. Biosens Bioelectron 2017; 96:62-67. [DOI: 10.1016/j.bios.2017.04.024] [Citation(s) in RCA: 42] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/12/2017] [Revised: 04/07/2017] [Accepted: 04/18/2017] [Indexed: 01/06/2023]
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12
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Zeng WJ, Liao N, Lei YM, Zhao J, Chai YQ, Yuan R, Zhuo Y. Hemin as electrochemically regenerable co-reaction accelerator for construction of an ultrasensitive PTCA-based electrochemiluminescent aptasensor. Biosens Bioelectron 2017; 100:490-496. [PMID: 28965054 DOI: 10.1016/j.bios.2017.09.040] [Citation(s) in RCA: 48] [Impact Index Per Article: 6.9] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/17/2017] [Revised: 09/15/2017] [Accepted: 09/20/2017] [Indexed: 01/18/2023]
Abstract
In this work, hemin was firstly used as electrochemically regenerable co-reaction accelerator for signal amplification to develop an ultrasensitive aptasensor for Aflatoxin M1 (AFM1) detection. Initially, the perylenetetracarboxylic acid (PTCA) was directly employed as luminophore to construct the ECL sensing nano-platform by combining Au nanoparticles (Au NPs) for immobilizing thiol-terminated hairpin probe (H1). Then with the help of hairpin H2, H3, the AFM1-catalyzed hairpin assembly (CHA) was executed to produce the H1-H3 duplex, which could further initiate the hybridization chain reaction (HCR) to generate dendritic DNA polymers consisting of G-rich sequence for capturing large quantities of hemin on the electrode surface. Herein, hemin as electrochemically regenerable co-reaction accelerator could interact with the co-reactant (S2O82-) to obviously improve the luminous efficiency of the PTCA. Therefore, a strong and stable ECL signal was achieved by the employment of hemin as electrochemically regenerable co-reaction accelerator. The proposed aptasensor determined AFM1 down to 0.09pgmL-1 within a linear range of 0.4pgmL-1 to 400ngmL-1. With excellent sensitivity and stability, the strategy provided an efficient and simple method for the trace detection of biomolecules in clinical analysis.
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Affiliation(s)
- Wei-Jia Zeng
- Key Laboratory of Luminescent and Real-Time Analytical Chemistry (Southwest University), Ministry of Education, College of Chemistry and Chemical Engineering, Southwest University, Chongqing 400715, China
| | - Ni Liao
- Key Laboratory of Luminescent and Real-Time Analytical Chemistry (Southwest University), Ministry of Education, College of Chemistry and Chemical Engineering, Southwest University, Chongqing 400715, China; College of Biological and Chemical Engineering, Panzhihua University, Panzhihua 617000, China
| | - Yan-Mei Lei
- Key Laboratory of Luminescent and Real-Time Analytical Chemistry (Southwest University), Ministry of Education, College of Chemistry and Chemical Engineering, Southwest University, Chongqing 400715, China
| | - Jing Zhao
- Key Laboratory of Luminescent and Real-Time Analytical Chemistry (Southwest University), Ministry of Education, College of Chemistry and Chemical Engineering, Southwest University, Chongqing 400715, China
| | - Ya-Qin Chai
- Key Laboratory of Luminescent and Real-Time Analytical Chemistry (Southwest University), Ministry of Education, College of Chemistry and Chemical Engineering, Southwest University, Chongqing 400715, China
| | - Ruo Yuan
- Key Laboratory of Luminescent and Real-Time Analytical Chemistry (Southwest University), Ministry of Education, College of Chemistry and Chemical Engineering, Southwest University, Chongqing 400715, China.
| | - Ying Zhuo
- Key Laboratory of Luminescent and Real-Time Analytical Chemistry (Southwest University), Ministry of Education, College of Chemistry and Chemical Engineering, Southwest University, Chongqing 400715, China.
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13
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Yang J, Dou B, Yuan R, Xiang Y. Aptamer/Protein Proximity Binding-Triggered Molecular Machine for Amplified Electrochemical Sensing of Thrombin. Anal Chem 2017; 89:5138-5143. [PMID: 28393515 DOI: 10.1021/acs.analchem.7b00827] [Citation(s) in RCA: 93] [Impact Index Per Article: 13.3] [Reference Citation Analysis] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/19/2022]
Abstract
The development of convenient and sensitive methods without involving any enzymes or complex nanomaterials for the monitoring of proteins is of great significance in disease diagnostics. In this work, we describe the validation of a new aptamer/protein proximity binding-triggered molecular machinery amplification strategy for sensitive electrochemical assay of thrombin in complex serum samples. The sensing interface is prepared by self-assembly of three-stranded DNA complexes on the gold electrode. The association of two distinct functional aptamers with different sites of thrombin triggers proximity binding-induced displacement of one of the short single-stranded DNAs (ssDNAs) from the surface-immobilized three-stranded DNA complexes, exposing a prelocked toehold domain to hybridize with a methylene blue (MB)-tagged fuel ssDNA strand (MB-DNA). Subsequent toehold-mediated strand displacement by the MB-DNA leads to the release and recycling of the aptamer/protein complexes and the function of the molecular machine. Eventually, a large number of MB-DNA strands are captured by the sensor surface, generating drastically amplified electrochemical responses from the MB tags for sensitive detection of thrombin. Our signal amplified sensor is completely enzyme-free and shows a dynamic range from 5 pM to 1 nM with a detection limit of 1.7 pM. Such sensor also has a high specificity for thrombin assay in serum samples. By changing the affinity probe pairs, the developed sensor can be readily expanded as a more general platform for sensitive detection of different types of proteins.
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Affiliation(s)
- Jianmei Yang
- Key Laboratory of Luminescent and Real-Time Analytical Chemistry, Ministry of Education, School of Chemistry and Chemical Engineering, Southwest University , Chongqing 400715, PR China
| | - Baoting Dou
- Key Laboratory of Luminescent and Real-Time Analytical Chemistry, Ministry of Education, School of Chemistry and Chemical Engineering, Southwest University , Chongqing 400715, PR China
| | - Ruo Yuan
- Key Laboratory of Luminescent and Real-Time Analytical Chemistry, Ministry of Education, School of Chemistry and Chemical Engineering, Southwest University , Chongqing 400715, PR China
| | - Yun Xiang
- Key Laboratory of Luminescent and Real-Time Analytical Chemistry, Ministry of Education, School of Chemistry and Chemical Engineering, Southwest University , Chongqing 400715, PR China
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14
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Gao X, Geng M, Li Y, Wang X, Yu HZ. Revealing and Resolving the Restrained Enzymatic Cleavage of DNA Self-Assembled Monolayers on Gold: Electrochemical Quantitation and ESI-MS Confirmation. Anal Chem 2017; 89:2464-2471. [PMID: 28192924 DOI: 10.1021/acs.analchem.6b04573] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/03/2023]
Abstract
Herein, we report a combined electrochemical and ESI-MS study of the enzymatic hydrolysis efficiency of DNA self-assembled monolayers (SAMs) on gold, platform systems for understanding nucleic acid surface chemistry, and for constructing DNA-based biosensors. Our electrochemical approach is based on the comparison of the amounts of surface-tethered DNA nucleotides before and after exonuclease I (Exo I) incubation using electrostatically bound [Ru(NH3)6]3+ as redox indicators. It is surprising to reveal that the hydrolysis efficiency of ssDNA SAMs does not depend on the packing density and base sequence, and that the cleavage ends with surface-bound shorter strands (9-13 mers). The ex-situ ESI-MS observations confirmed that the hydrolysis products for ssDNA SAMs (from 24 to 56 mers) are dominated with 10-15 mer fragments, in contrast to the complete digestion in solution. Such surface-restrained hydrolysis behavior is due to the steric hindrance of the underneath electrode to the Exo I/DNA binding, which is essential for the occurrence of Exo I-catalyzed processive cleavage. More importantly, we have shown that the hydrolysis efficiency of ssDNA SAMs can be remarkably improved by adopting long alkyl linkers (locating DNA strands further away from the substrates).
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Affiliation(s)
- Xiaoyi Gao
- Department of Chemistry, Beijing Normal University , Beijing 100875, P. R. China
| | - Mingxi Geng
- Department of Chemistry, Beijing Normal University , Beijing 100875, P. R. China
| | - Yunchao Li
- Department of Chemistry, Beijing Normal University , Beijing 100875, P. R. China
| | - Xinglin Wang
- Department of Chemistry, Beijing Normal University , Beijing 100875, P. R. China
| | - Hua-Zhong Yu
- Department of Chemistry, Simon Fraser University , Burnaby, British Columbia V5A 1S6, Canada
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15
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Chen P, Wu P, Zhang Y, Chen J, Jiang X, Zheng C, Hou X. Strand Displacement-Induced Enzyme-Free Amplification for Label-Free and Separation-Free Ultrasensitive Atomic Fluorescence Spectrometric Detection of Nucleic Acids and Proteins. Anal Chem 2016; 88:12386-12392. [PMID: 28193041 DOI: 10.1021/acs.analchem.6b03633] [Citation(s) in RCA: 36] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/02/2023]
Abstract
In previous work, we have developed a simple strategy for a label-free and separation-free bioassay for target DNA and protein, with the limit of detection at the nM level only. Herein, taking advantage of atomic fluorescence spectrometric detection of metal ions and amplification of DNA, a label-free and separation-free ultrasensitive homogeneous DNA analytical platform for target DNA and protein detection was developed on the basis of an enzyme-free strand displacement signal amplification strategy for dramatically improved detectability. Using the T-Hg2+-T hairpin structure as the probe, the target DNA binds with HP (T-Hg2+-T hairpin structure) and released the Hg2+ first; then, the P4 (help DNA) hybridizes with target-P3 complex and free the target DNA, which is used to trigger another reaction cycle. The cycling use of the target amplifies the mercury atomic fluorescence intensity for ultrasensitive DNA detection. Moreover, the enzyme-free strand displacement signal amplification analytical system was further extended for protein detection by introducing an aptamer-P2 arched structure with thrombin as a model analyte. The current homogeneous strategy provides an ultrasensitive AFS detection of DNA and thrombin down to the 0.3 aM and 0.1 aM level, respectively, with a high selectivity. This strategy could be a promising unique alternative for nucleic acid and protein assay.
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Affiliation(s)
- Piaopiao Chen
- College of Chemistry, and ‡Analytical & Testing Center, Sichuan University , 29 Wangjiang Road, Chengdu, Sichuan 610064, China
| | - Peng Wu
- College of Chemistry, and ‡Analytical & Testing Center, Sichuan University , 29 Wangjiang Road, Chengdu, Sichuan 610064, China
| | - Yuxiang Zhang
- College of Chemistry, and ‡Analytical & Testing Center, Sichuan University , 29 Wangjiang Road, Chengdu, Sichuan 610064, China
| | - Junbo Chen
- College of Chemistry, and ‡Analytical & Testing Center, Sichuan University , 29 Wangjiang Road, Chengdu, Sichuan 610064, China
| | - Xiaoming Jiang
- College of Chemistry, and ‡Analytical & Testing Center, Sichuan University , 29 Wangjiang Road, Chengdu, Sichuan 610064, China
| | - Chengbin Zheng
- College of Chemistry, and ‡Analytical & Testing Center, Sichuan University , 29 Wangjiang Road, Chengdu, Sichuan 610064, China
| | - Xiandeng Hou
- College of Chemistry, and ‡Analytical & Testing Center, Sichuan University , 29 Wangjiang Road, Chengdu, Sichuan 610064, China
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16
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Shi K, Dou B, Yang J, Yuan R, Xiang Y. Target-triggered catalytic hairpin assembly and TdT-catalyzed DNA polymerization for amplified electronic detection of thrombin in human serums. Biosens Bioelectron 2016; 87:495-500. [PMID: 27592241 DOI: 10.1016/j.bios.2016.08.056] [Citation(s) in RCA: 50] [Impact Index Per Article: 6.3] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/27/2016] [Revised: 08/14/2016] [Accepted: 08/17/2016] [Indexed: 01/18/2023]
Abstract
Specific and sensitive detection of protein biomarkers is of great importance in biomedical and bioanalytical applications. In this work, a dual amplified signal enhancement approach based on the integration of catalytic hairpin assembly (CHA) and terminal deoxynucleotidyl transferase (TdT)-mediated in situ DNA polymerization has been developed for highly sensitive and label-free electrochemical detection of thrombin in human serums. The presence of the target thrombin leads to the unfolding and capture of a significant number of hairpin signal probes with free 3'-OH termini on the sensor electrode. Subsequently, TdT can catalyze the elongation of the signal probes and formation of many G-quadruplex sequence replicates with the presence of dGTP and dATP at a molar ratio of 6:4. These G-quadruplex sequences bind hemin and generate drastically amplified current response for sensitive detection of thrombin in a completely label-free fashion. The sensor shows a linear range of 0.5pM-10.0nM and a detection limit of 0.12pM for thrombin. Moreover, the developed sensor can selectively discriminate the target thrombin against other non-target proteins and can be employed to monitor thrombin in human serum samples.
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Affiliation(s)
- Kai Shi
- Key Laboratory of Luminescent and Real-Time Analytical Chemistry, Ministry of Education, School of Chemistry and Chemical Engineering, Southwest University, Chongqing 400715, PR China
| | - Baoting Dou
- Key Laboratory of Luminescent and Real-Time Analytical Chemistry, Ministry of Education, School of Chemistry and Chemical Engineering, Southwest University, Chongqing 400715, PR China
| | - Jianmei Yang
- Key Laboratory of Luminescent and Real-Time Analytical Chemistry, Ministry of Education, School of Chemistry and Chemical Engineering, Southwest University, Chongqing 400715, PR China
| | - Ruo Yuan
- Key Laboratory of Luminescent and Real-Time Analytical Chemistry, Ministry of Education, School of Chemistry and Chemical Engineering, Southwest University, Chongqing 400715, PR China
| | - Yun Xiang
- Key Laboratory of Luminescent and Real-Time Analytical Chemistry, Ministry of Education, School of Chemistry and Chemical Engineering, Southwest University, Chongqing 400715, PR China.
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Li X, Ding X, Li Y, Wang L, Fan J. A TiS2 nanosheet enhanced fluorescence polarization biosensor for ultra-sensitive detection of biomolecules. NANOSCALE 2016; 8:9852-9860. [PMID: 27120690 DOI: 10.1039/c6nr00946h] [Citation(s) in RCA: 19] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/05/2023]
Abstract
Development of new strategies for the sensitive and selective detection of ultra-low concentrations of specific cancer markers is of great importance for assessing cancer therapeutics due to its crucial role in early clinical diagnoses and biomedical applications. In this work, we have developed two types of fluorescence polarization (FP) amplification assay strategies for the detection of biomolecules by using TiS2 as a FP enhancer and Zn(2+)-dependent self-hydrolyzing deoxyribozymes as catalysts to realize enzyme-catalyzed target-recycling signal amplification. One approach is based on the terminal protection of small-molecule-linked DNA, in which biomolecular binding to small molecules in DNA-small-molecule chimeras can protect the conjugated DNA from degradation by exonuclease I (Exo I); the other approach is based on the terminal protection of biomolecular bound aptamer DNA, in which biomolecules directly bound to the single strand aptamer DNA can protect the ssDNA from degradation by Exo I. We select folate receptor (FR) and thrombin (Tb) as model analytes to verify the current concept. It is shown that under optimized conditions, our strategies exhibit high sensitivity and selectivity for the quantification of FR and Tb with low detection limits (0.003 ng mL(-1) and 0.01 pM, respectively). Additionally, this strategy is a simple "mix and detect" approach, and does not require any separation steps. This biosensor is also utilized in the analysis of real biological samples, the results agree well with those obtained by the enzyme-linked immunosorbent assay (ELISA).
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Affiliation(s)
- Xiang Li
- School of Environment, Henan Key Laboratory for Environmental Pollution Control, Key Laboratory for Yellow River and Huai River Water Environment and Pollution Control, Ministry of Education, Henan Normal University, Xinxiang, Henan 453007, P. R. China.
| | - Xuelian Ding
- Department of Chemistry, Sanquan Medical College, Xinxiang Medical University, Xinxiang, Henan 453003, P. R. China
| | - Yongfang Li
- Life Science College, Henan Normal University, Xinxiang, Henan, 453007, P. R. China
| | - Linsong Wang
- Life Science College, Henan Normal University, Xinxiang, Henan, 453007, P. R. China
| | - Jing Fan
- School of Environment, Henan Key Laboratory for Environmental Pollution Control, Key Laboratory for Yellow River and Huai River Water Environment and Pollution Control, Ministry of Education, Henan Normal University, Xinxiang, Henan 453007, P. R. China.
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19
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Yan M, Bai W, Zhu C, Huang Y, Yan J, Chen A. Design of nuclease-based target recycling signal amplification in aptasensors. Biosens Bioelectron 2015; 77:613-23. [PMID: 26485175 DOI: 10.1016/j.bios.2015.10.015] [Citation(s) in RCA: 65] [Impact Index Per Article: 7.2] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/11/2015] [Revised: 09/21/2015] [Accepted: 10/05/2015] [Indexed: 10/22/2022]
Abstract
Compared with conventional antibody-based immunoassay methods, aptasensors based on nucleic acid aptamer have made at least two significant breakthroughs. One is that aptamers are more easily used for developing various simple and rapid homogeneous detection methods by "sample in signal out" without multi-step washing. The other is that aptamers are more easily employed for developing highly sensitive detection methods by using various nucleic acid-based signal amplification approaches. As many substances playing regulatory roles in physiology or pathology exist at an extremely low concentration and many chemical contaminants occur in trace amounts in food or environment, aptasensors for signal amplification contribute greatly to detection of such targets. Among the signal amplification approaches in highly sensitive aptasensors, the nuclease-based target recycling signal amplification has recently become a research focus because it shows easy design, simple operation, and rapid reaction and can be easily developed for homogenous assay. In this review, we summarized recent advances in the development of various nuclease-based target recycling signal amplification with the aim to provide a general guide for the design of aptamer-based ultrasensitive biosensing assays.
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Affiliation(s)
- Mengmeng Yan
- Institute of Quality Standards and Testing Technology for Agro-products, Key Laboratory of Agro-product Quality and Safety, Chinese Academy of Agricultural Science, Beijing 100081, China; Key Laboratory of Agri-Food Quality and Safety, Ministry of Agriculture, Beijing 100081, China
| | - Wenhui Bai
- Institute of Quality Standards and Testing Technology for Agro-products, Key Laboratory of Agro-product Quality and Safety, Chinese Academy of Agricultural Science, Beijing 100081, China; Key Laboratory of Agri-Food Quality and Safety, Ministry of Agriculture, Beijing 100081, China
| | - Chao Zhu
- Institute of Quality Standards and Testing Technology for Agro-products, Key Laboratory of Agro-product Quality and Safety, Chinese Academy of Agricultural Science, Beijing 100081, China; Key Laboratory of Agri-Food Quality and Safety, Ministry of Agriculture, Beijing 100081, China
| | - Yafei Huang
- Institute of Quality Standards and Testing Technology for Agro-products, Key Laboratory of Agro-product Quality and Safety, Chinese Academy of Agricultural Science, Beijing 100081, China; Key Laboratory of Agri-Food Quality and Safety, Ministry of Agriculture, Beijing 100081, China; College of Food Science and Technology, Hainan University, Haikou 570228, China
| | - Jiao Yan
- Institute of Quality Standards and Testing Technology for Agro-products, Key Laboratory of Agro-product Quality and Safety, Chinese Academy of Agricultural Science, Beijing 100081, China; Key Laboratory of Agri-Food Quality and Safety, Ministry of Agriculture, Beijing 100081, China; College of Food Science and Technology, Hainan University, Haikou 570228, China
| | - Ailiang Chen
- Institute of Quality Standards and Testing Technology for Agro-products, Key Laboratory of Agro-product Quality and Safety, Chinese Academy of Agricultural Science, Beijing 100081, China; Key Laboratory of Agri-Food Quality and Safety, Ministry of Agriculture, Beijing 100081, China.
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Zhang Z, Xiao T, Hao J, Yu P, Ohsaka T, Mao L. An Online Electrochemical System for Continuous Measurement of Glutamate with Signal Amplification by Enzymatic Substrate Cycling. ELECTROANAL 2015. [DOI: 10.1002/elan.201500122] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
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21
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Linear light-scattering of gold nanostars for versatile biosensing of nucleic acids and proteins using exonuclease III as biocatalyst to signal amplification. Biosens Bioelectron 2015; 71:427-433. [DOI: 10.1016/j.bios.2015.04.070] [Citation(s) in RCA: 22] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/10/2015] [Revised: 04/07/2015] [Accepted: 04/21/2015] [Indexed: 11/22/2022]
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22
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Ultrasensitive label-free detection of miRNA with asymmetric hairpin probe, exonuclease I and SYBR Green I. Chem Res Chin Univ 2015. [DOI: 10.1007/s40242-015-4378-x] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/26/2022]
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23
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Shi L, Yu Y, Chen Z, Zhang L, He S, Shi Q, Yang H. A label-free hemin/G-quadruplex DNAzyme biosensor developed on electrochemically modified electrodes for detection of a HBV DNA segment. RSC Adv 2015. [DOI: 10.1039/c4ra09936b] [Citation(s) in RCA: 32] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/27/2022] Open
Abstract
A label-free biosensor based on Au/G–CMWCNTs-GCE was proposed for the detection of a HBV DNA segment with a low LOD.
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Affiliation(s)
- Lijuan Shi
- School of Pharmaceutical Sciences
- Sun Yat-sen University
- Guangzhou 510006
- China
| | - Yanyan Yu
- School of Pharmaceutical Sciences
- Sun Yat-sen University
- Guangzhou 510006
- China
| | - Zuanguang Chen
- School of Pharmaceutical Sciences
- Sun Yat-sen University
- Guangzhou 510006
- China
| | - Lin Zhang
- School of Pharmaceutical Sciences
- Sun Yat-sen University
- Guangzhou 510006
- China
| | - Sijing He
- School of Pharmaceutical Sciences
- Sun Yat-sen University
- Guangzhou 510006
- China
| | - Qiujia Shi
- School of Pharmaceutical Sciences
- Sun Yat-sen University
- Guangzhou 510006
- China
| | - Hongzhi Yang
- The Third Affiliated Hospital
- Sun Yat-sen University
- Guangzhou 510630
- China
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24
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Shi X, Wen J, Li Y, Zheng Y, Zhou J, Li X, Yu HZ. DNA molecular beacon-based plastic biochip: a versatile and sensitive scanometric detection platform. ACS APPLIED MATERIALS & INTERFACES 2014; 6:21788-21797. [PMID: 24852130 DOI: 10.1021/am5007029] [Citation(s) in RCA: 23] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/03/2023]
Abstract
In this paper, we report a novel DNA molecular beacon (MB)-based plastic biochip platform for scanometric detection of a range of analytical targets. Hairpin DNA strands, which are dually modified with amino and biotin groups at their two ends are immobilized on a disposable plastic (polycarbonate) substrate as recognition element and gold nanoparticle-assisted silver-staining as signal reading protocol. Initially, the immobilized DNA probes are in their folded forms; upon target binding the hairpin secondary structure of the probe strand is "forced" open (i.e., converted to the unfolded state). Nanogold-streptavidin conjugates can then bind the terminal biotin groups and promote the deposition of rather large silver particles which can be either directly visualized or quantified with a standard flatbed scanner. We demonstrate that with properly designed probe sequences and optimized preparation conditions, a range of molecular targets, such as DNA strands, proteins (thrombin) and heavy metal ions (Hg(2+)), can be detected with high sensitivity and excellent selectivity. The detection can be done in both standard physiological buffers and real world samples. This constitutes a platform technology for performing rapid, sensitive, cost-effective, and point-of-care (POC) chemical analysis and medical diagnosis.
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Affiliation(s)
- Xiaoli Shi
- Department of Chemistry, Beijing Normal University , Beijing 100875, P. R. China
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25
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Jing P, Xu W, Yi H, Wu Y, Bai L, Yuan R. An amplified electrochemical aptasensor for thrombin detection based on pseudobienzymic Fe3O4-Au nanocomposites and electroactive hemin/G-quadruplex as signal enhancers. Analyst 2014; 139:1756-61. [PMID: 24519466 DOI: 10.1039/c3an02237d] [Citation(s) in RCA: 25] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
A sensitive and selective electrochemical aptasensor for thrombin detection was constructed based on hemin/G-quadruplex as the signal label and Fe3O4-Au nanocomposites with glucose oxidase (GOx-) and peroxide-mimicking enzyme activity as the signal enhancers. Due to their large surface area and good biocompatibility, Fe3O4-Au nanocomposites were employed to immobilize electroactive hemin/G-quadruplex, which was formed by the conjugation between a single-stranded guanine-rich nucleic acid and hemin. Based on the GOx-mimicking enzyme activity, Au nanoparticles on the surface of the Fe3O4-Au nanocomposites effectively catalyzed the oxidization of glucose in the presence of dissolved O2, accompanied by the production of H2O2. Both the Fe3O4 cores of Fe3O4-Au nanocomposites and hemin/G-quadruplex with H2O2-mimicking enzyme activity could catalyze the reduction of the generated H2O2, which promoted the electron transfer of hemin and amplified the electrochemical signal. The proposed electrochemical aptasensor had a wide dynamic linear range of 0.1 pM to 20 nM with a lower detection limit of 0.013 pM, which provided a promising method for a sensitive assay for the detection of proteins in electrochemical aptasensors.
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Affiliation(s)
- Pei Jing
- Education Ministry Key Laboratory on Luminescence and Real-TimeAnalysis, School of Chemistry and Chemical Engineering, Southwest University, Chongqing 400715, People's Republic of China.
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26
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Xu W, Yi H, Yuan Y, Jing P, Chai Y, Yuan R, Wilson GS. An electrochemical aptasensor for thrombin using synergetic catalysis of enzyme and porous Au@Pd core-shell nanostructures for signal amplification. Biosens Bioelectron 2014; 64:423-8. [PMID: 25280342 DOI: 10.1016/j.bios.2014.08.091] [Citation(s) in RCA: 45] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/27/2014] [Revised: 08/25/2014] [Accepted: 08/30/2014] [Indexed: 01/01/2023]
Abstract
In this work, a sensitive electrochemical aptasensor for thrombin (TB) based on synergetic catalysis of enzyme and porous Au@Pd core-shell nanostructure has been constructed. With the advantages of large surface area and outstanding catalytic performance, porous Au@Pd core-shell nanostructures were firstly employed as the nanocarrier for the immobilization of electroactive toluidine blue (Tb), hemin/G-quadruplex formed by intercalating hemin into the TB aptamer (TBA) and glucose oxidase (GOx). As a certain amount of glucose was added into the detection cell, GOx rapidly catalyzed the oxidation of glucose, coupling with the local generation of H2O2 in the presence of dissolved O2. Then, porous Au@Pd nanoparticles and hemin/G-quadruplex as the peroxidase mimics efficiently catalyzed the reduction of H2O2, amplifying the electrochemical signal and improving the sensitivity. Finally, a detection limit of 0.037pM for TB was achieved. The excellent performance of the aptasensor indicated its promising prospect as a valuable tool in simple and cost-effective TB detection in clinical application.
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Affiliation(s)
- Wenju Xu
- Key Laboratory of Luminescent and Real-Time Analytical Chemistry (Southwest University), Ministry of Education, School of Chemistry and Chemical Engineering, Southwest University, Chongqing 400715, PR China; Deparment of Chemistry, University of Kansas, Lawrence, KS, 66045, USA.
| | - Huayu Yi
- Key Laboratory of Luminescent and Real-Time Analytical Chemistry (Southwest University), Ministry of Education, School of Chemistry and Chemical Engineering, Southwest University, Chongqing 400715, PR China
| | - Yali Yuan
- Key Laboratory of Luminescent and Real-Time Analytical Chemistry (Southwest University), Ministry of Education, School of Chemistry and Chemical Engineering, Southwest University, Chongqing 400715, PR China
| | - Pei Jing
- Key Laboratory of Luminescent and Real-Time Analytical Chemistry (Southwest University), Ministry of Education, School of Chemistry and Chemical Engineering, Southwest University, Chongqing 400715, PR China
| | - Yaqin Chai
- Key Laboratory of Luminescent and Real-Time Analytical Chemistry (Southwest University), Ministry of Education, School of Chemistry and Chemical Engineering, Southwest University, Chongqing 400715, PR China
| | - Ruo Yuan
- Key Laboratory of Luminescent and Real-Time Analytical Chemistry (Southwest University), Ministry of Education, School of Chemistry and Chemical Engineering, Southwest University, Chongqing 400715, PR China
| | - George S Wilson
- Deparment of Chemistry, University of Kansas, Lawrence, KS, 66045, USA
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27
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Wang Q, Yang C, Xiang Y, Yuan R, Chai Y. Dual amplified and ultrasensitive electrochemical detection of mutant DNA Biomarkers based on nuclease-assisted target recycling and rolling circle amplifications. Biosens Bioelectron 2014; 55:266-71. [DOI: 10.1016/j.bios.2013.12.034] [Citation(s) in RCA: 54] [Impact Index Per Article: 5.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/17/2013] [Revised: 11/20/2013] [Accepted: 12/11/2013] [Indexed: 11/26/2022]
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28
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29
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Electrochemiluminescence bioassay for thrombin based on dynamic assembly of aptamer, thrombin and N-(aminobutyl)-N-(ethylisoluminol) functionalized gold nanoparticles. Electrochim Acta 2014. [DOI: 10.1016/j.electacta.2014.01.098] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022]
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30
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Zhao Q, Zhang Z, Xu L, Xia T, Li N, Liu J, Fang X. Exonuclease I aided enzyme-linked aptamer assay for small-molecule detection. Anal Bioanal Chem 2014; 406:2949-55. [PMID: 24599422 DOI: 10.1007/s00216-014-7705-z] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/02/2013] [Revised: 01/23/2014] [Accepted: 02/18/2014] [Indexed: 12/31/2022]
Abstract
A novel enzyme-linked aptamer assay (ELAA) with the aid of Exonuclease I (Exo I) for colorimetric detection of small molecules was developed. The fluorescein isothiocyanate (FITC)-labeled aptamer was integrated into a double-stranded DNA (dsDNA). In the presence of target, the binding of aptamer with target protected the aptamer from Exo I degradation, which resulted in the FITC tag remaining on the aptamer. Then, the anti-FITC-HRP conjugate was used to produce an optically observable signal. By monitoring the color change, we were able to detect two model molecules, ATP and L-argininamide, with high selectivity and high sensitivity even in the serum matrix. It is expected to be a simple and general ELAA method with wide applicability.
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Affiliation(s)
- Qiuling Zhao
- Beijing National Laboratory for Molecular Science, Key Laboratory of Molecular Nanostructures and Nanotechnology, Institute of Chemistry, Chinese Academy of Sciences, Beijing, 100190, China
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31
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Label-free DNAsensor with PCR-like sensitivity based on background reduction and target-triggered polymerization amplification. Biosens Bioelectron 2014; 52:417-21. [DOI: 10.1016/j.bios.2013.09.007] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/01/2013] [Accepted: 09/04/2013] [Indexed: 11/23/2022]
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32
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Roembke BT, Nakayama S, Sintim HO. Nucleic acid detection using G-quadruplex amplification methodologies. Methods 2013; 64:185-98. [PMID: 24135042 PMCID: PMC7129037 DOI: 10.1016/j.ymeth.2013.10.003] [Citation(s) in RCA: 35] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/18/2013] [Revised: 09/19/2013] [Accepted: 10/02/2013] [Indexed: 12/28/2022] Open
Abstract
In the last decade, there has been an explosion in the use of G-quadruplex labels to detect various analytes, including DNA/RNA, proteins, metals and other metabolites. In this review, we focus on strategies for the detection of nucleic acids, using G-quadruplexes as detection labels or as enzyme labels that amplify detection signals. Methods to detect other analytes are briefly mentioned. We highlight various strategies, including split G-quadruplex, hemin-G-quadruplex conjugates, molecular beacon G-quadruplex or inhibited G-quadruplex probes. The tandem use of G-quadruplex labels with various DNA-modifying enzymes, such as polymerases (used for rolling circle amplification), exonucleases and endonucleases, is also discussed. Some of the detection modalities that are discussed in this review include fluorescence, colorimetric, chemiluminescence, and electrochemical methods.
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33
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Golub E, Freeman R, Willner I. Hemin/G-quadruplex-catalyzed aerobic oxidation of thiols to disulfides: application of the process for the development of sensors and aptasensors and for probing acetylcholine esterase activity. Anal Chem 2013; 85:12126-33. [PMID: 24299064 DOI: 10.1021/ac403305k] [Citation(s) in RCA: 74] [Impact Index Per Article: 6.7] [Reference Citation Analysis] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/11/2022]
Abstract
This study describes the novel hemin/G-quadruplex DNAzyme-catalyzed aerobic oxidation of thiols to disulfides and the respective mechanism. The mechanism of the reaction involves the DNAzyme-catalyzed oxidation of thiols to disulfides and the thiol-mediated autocatalytic generation of H2O2 from oxygen. The coupling of a concomitant H2O2-mediated hemin/G-quadruplex-catalyzed oxidation of Amplex Red to the fluorescent resorufin as a transduction module provides a fluorescent signal for probing the catalyzed oxidation of the thiol to disulfides and for probing sensing processes that yield the hemin/G-quadruplex as a functional label. Accordingly, a versatile sensing method for analyzing thiols (L-cysteine, glutathione) using the H2O2-mediated DNAzyme-catalyzed oxidation of Amplex Red to the resorufin was developed. Also, the L-cysteine and Amplex Red system was implemented as an auxiliary fluorescent transduction module for probing recognition events that form the catalytic hemin/G-quadruplex structures. This is exemplified with the development of thrombin aptasensor. The thrombin/thrombin binding aptamer recognition complex binds hemin, and the resulting catalytic complex activates the auxiliary transduction module, involving the aerobic oxidation of l-cysteine and the concomitant formation of the fluorescent resorufin. Finally, the hemin/G-quadruplex DNAzyme/Amplex Red system was used to follow the activity of acetylcholine esterase, AChE, and to probe its inhibition. The AChE-catalyzed hydrolysis of acetylthiocholine to the thiol-functionalized thiocholine enabled the probing of the enzymatic activity of AChE through the hemin/G-quadruplex-catalyzed aerobic oxidation of thiocholine to the respective disulfide and the concomitant generation of the fluorescent resorufin product.
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Affiliation(s)
- Eyal Golub
- The Institute of Chemistry, The Minerva Center for Biohybrid Complex Systems, The Hebrew University of Jerusalem , Jerusalem 91904, Israel
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34
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Wang G, He X, Chen L, Zhu Y, Zhang X, Wang L. Conformational switch for cisplatin with hemin/G-quadruplex DNAzyme supersandwich structure. Biosens Bioelectron 2013; 50:210-6. [DOI: 10.1016/j.bios.2013.06.046] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/15/2013] [Accepted: 06/21/2013] [Indexed: 01/22/2023]
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35
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G-quadruplexes as sensing probes. Molecules 2013; 18:14760-79. [PMID: 24288003 PMCID: PMC6270327 DOI: 10.3390/molecules181214760] [Citation(s) in RCA: 59] [Impact Index Per Article: 5.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/09/2013] [Revised: 11/13/2013] [Accepted: 11/13/2013] [Indexed: 01/09/2023] Open
Abstract
Guanine-rich sequences of DNA are able to create tetrastranded structures known as G-quadruplexes; they are formed by the stacking of planar G-quartets composed of four guanines paired by Hoogsteen hydrogen bonding. G-quadruplexes act as ligands for metal ions and aptamers for various molecules. Interestingly, the G-quadruplexes form a complex with anionic porphyrin hemin and exhibit peroxidase-like activity. This review focuses on overview of sensing techniques based on G-quadruplex complexes with anionic porphyrins for detection of various analytes, including metal ions such as K+, Ca2+, Ag+, Hg2+, Cu2+, Pb2+, Sr2+, organic molecules, nucleic acids, and proteins. Principles of G-quadruplex-based detection methods involve DNA conformational change caused by the presence of analyte which leads to a decrease or an increase in peroxidase activity, fluorescence, or electrochemical signal of the used probe. The advantages of various detection techniques are also discussed.
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36
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Yi H, Xu W, Yuan Y, Bai L, Wu Y, Chai Y, Yuan R. A pseudo triple-enzyme cascade amplified aptasensor for thrombin detection based on hemin/G-quadruplex as signal label. Biosens Bioelectron 2013; 54:415-20. [PMID: 24296062 DOI: 10.1016/j.bios.2013.11.036] [Citation(s) in RCA: 29] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/25/2013] [Revised: 11/07/2013] [Accepted: 11/07/2013] [Indexed: 12/13/2022]
Abstract
In this work, a pseudo triple-enzyme cascade amplified electrochemical aptasensor based on hemin/G-quadruplex as signal label for thrombin (TB) was constructed and the amplified electrochemical signal was achieved by the corporate catalysis of alcohol dehydrogenase-graphene sheets (ADH-GSs) bionanocomposite and hemin/G-quadruplex, which simultaneously acted as NADH oxidase and HRP-mimicking DNAzyme. Through "sandwich" reaction, hemin/G-quadruplex labeled gold nanoparticles-ADH-GSs bionanocomposite (AuNPs-ADH-GSs) was captured on electrode surface and thus obtained the electrochemical signal. After the addition of ethanol into the electrolytic cell, ADH availably catalyzed the oxidation of ethanol with the reduction of NAD(+) to NADH. Then, hemin/G-quadruplex as NADH oxidase catalyzed the oxidization of NADH, accompanying with the production of H2O2. Simultaneously, hemin/G-quadruplex as HRP-mimicking DNAzyme catalyzed the reduction of the generated H2O2. Such a catalysis strategy greatly promoted the electron transfer of hemin and resulted in the specific enhancement of electrochemical signal. The proposed TB aptasensor achieved a linear range of 1 pM-50 nM with a detection limit of 0.3 pM (defined as S/N=3). In addition, it showed satisfying stability and reproducibility, good specificity and sensitivity, indicating promising application for the detection of various proteins in clinical analysis.
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Affiliation(s)
- Huayu Yi
- Key Laboratory on Luminescence and Real-Time Analysis, School of Chemistry and Chemical Engineering, Southwest University, The Key Laboratory of Eco-environments in Three Gorges Reservoir Region, Chongqing 400715, PR China
| | - Wenju Xu
- Key Laboratory on Luminescence and Real-Time Analysis, School of Chemistry and Chemical Engineering, Southwest University, The Key Laboratory of Eco-environments in Three Gorges Reservoir Region, Chongqing 400715, PR China.
| | - Yali Yuan
- Key Laboratory on Luminescence and Real-Time Analysis, School of Chemistry and Chemical Engineering, Southwest University, The Key Laboratory of Eco-environments in Three Gorges Reservoir Region, Chongqing 400715, PR China
| | - Lijuan Bai
- Key Laboratory on Luminescence and Real-Time Analysis, School of Chemistry and Chemical Engineering, Southwest University, The Key Laboratory of Eco-environments in Three Gorges Reservoir Region, Chongqing 400715, PR China
| | - Yongmei Wu
- Key Laboratory on Luminescence and Real-Time Analysis, School of Chemistry and Chemical Engineering, Southwest University, The Key Laboratory of Eco-environments in Three Gorges Reservoir Region, Chongqing 400715, PR China
| | - Yaqin Chai
- Key Laboratory on Luminescence and Real-Time Analysis, School of Chemistry and Chemical Engineering, Southwest University, The Key Laboratory of Eco-environments in Three Gorges Reservoir Region, Chongqing 400715, PR China
| | - Ruo Yuan
- Key Laboratory on Luminescence and Real-Time Analysis, School of Chemistry and Chemical Engineering, Southwest University, The Key Laboratory of Eco-environments in Three Gorges Reservoir Region, Chongqing 400715, PR China
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37
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Evtugyn G, Cherkina U, Porfireva A, Danzberger J, Ebner A, Hianik T. Electrochemical Aptasensor Based on ZnO Modified Gold Electrode. ELECTROANAL 2013. [DOI: 10.1002/elan.201300195] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/24/2022]
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38
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Chiu WC, Huang CC. Combining Fibrinogen-Conjugated Gold Nanoparticles with a Cellulose Membrane for the Mass Spectrometry-Based Detection of Fibrinolytic-Related Proteins. Anal Chem 2013; 85:6922-9. [DOI: 10.1021/ac4013418] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/02/2023]
Affiliation(s)
| | - Chih-Ching Huang
- School of Pharmacy,
College of
Pharmacy, Kaohsiung Medical University,
Kaohsiung 80708, Taiwan
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